Detail Information

Basic Information:


  VIRBase ID:  

VHID00426993

  Virus:  

Human gammaherpesvirus 8 (Kaposi's sarcoma herpesvirus, KSHV)

  Host:  

Homo sapiens

  Confidence Score:  

0.6055

  Interaction Type:  

Virus-Host interaction

  Predicted Binding:

 

      kshv-miR-K12-10b:           INTS6:      

      *It may take a few minutes to display results.

Interactor Information:


Interactor1 Interactor2
Symbol kshv-miR-K12-10b INTS6
miRBase
Accession/Entrez ID		 MIMAT0002180 26512
Organism Human gammaherpesvirus 8 (Kaposi's sarcoma herpesvirus, KSHV) Homo sapiens
Category miRNA mRNA
Alias - DBI-1//DDX26//DDX26A//DICE1//HDB//INT6//Notchl2

RNA Editing:


Resource Symbol Editing Position Change Genetic Region
RADAR INTS6
chr13:52016500(-) A-I      intronic
chr13:52018468(-) A-I      intronic
chr13:52016448(-) A-I      intronic
chr13:52016457(-) A-I      intronic
chr13:52016489(-) A-I      intronic
chr13:52016498(-) A-I      intronic
chr13:52018454(-) A-I      intronic
chr13:51978107(-) A-I      intronic
chr13:52018491(-) A-I      intronic
chr13:51981906(-) A-I      intronic
chr13:52018311(-) A-I      intronic
chr13:52018492(-) A-I      intronic
chr13:52018522(-) A-I      intronic
chr13:52018359(-) A-I      intronic
chr13:52018529(-) A-I      intronic
chr13:51981961(-) A-I      intronic
chr13:51977636(-) A-I      intronic
chr13:51983352(-) A-I      intronic
chr13:52018487(-) A-I      intronic
chr13:52014226(-) A-I      intronic
chr13:52018663(-) A-I      intronic
chr13:52016153(-) A-I      intronic
chr13:51982500(-) A-I      intronic
chr13:52002576(-) A-I      intronic
chr13:52016094(-) A-I      intronic
chr13:52003869(-) A-I      intronic
chr13:52016176(-) A-I      intronic
chr13:52003737(-) A-I      intronic
chr13:52016152(-) A-I      intronic
chr13:52011138(-) A-I      intronic
chr13:52017806(-) A-I      intronic
chr13:52007461(-) A-I      intronic
chr13:52016133(-) A-I      intronic
chr13:51982444(-) A-I      intronic
chr13:52018680(-) A-I      intronic
chr13:51982484(-) A-I      intronic
chr13:52012023(-) A-I      intronic
chr13:51982417(-) A-I      intronic
chr13:52018776(-) A-I      intronic
chr13:52018798(-) A-I      intronic
chr13:51982428(-) A-I      intronic
chr13:51977554(-) A-I      intronic
chr13:52018802(-) A-I      intronic
chr13:51973432(-) A-I      intronic
chr13:52018286(-) A-I      intronic
chr13:51949367(-) A-I      intronic
chr13:52016121(-) A-I      intronic
chr13:51982454(-) A-I      intronic
chr13:52014265(-) A-I      intronic
chr13:52003787(-) A-I      intronic
chr13:52012114(-) A-I      intronic
chr13:52016089(-) A-I      intronic
chr13:52018490(-) A-I      intronic
chr13:51982418(-) A-I      intronic
chr13:52003788(-) A-I      intronic
chr13:52018822(-) A-I      intronic
chr13:52018823(-) A-I      intronic
chr13:51977529(-) A-I      intronic
chr13:51985626(-) A-I      intronic
chr13:51982474(-) A-I      intronic
chr13:51982139(-) A-I      intronic
chr13:52018260(-) A-I      intronic
chr13:52003676(-) A-I      intronic
chr13:52018386(-) A-I      intronic
chr13:52018369(-) A-I      intronic
chr13:52018693(-) A-I      intronic
chr13:51981980(-) A-I      intronic
chr13:52018389(-) A-I      intronic
chr13:52002577(-) A-I      intronic
chr13:51982070(-) A-I      intronic
chr13:52018773(-) A-I      intronic
chr13:52017776(-) A-I      intronic
chr13:52016081(-) A-I      intronic
chr13:52018520(-) A-I      intronic
chr13:52018763(-) A-I      intronic
chr13:52018761(-) A-I      intronic
chr13:52016072(-) A-I      intronic
chr13:52018828(-) A-I      intronic
chr13:52016049(-) A-I      intronic
chr13:52018310(-) A-I      intronic
chr13:52018859(-) A-I      intronic
chr13:52002732(-) A-I      intronic
chr13:52018880(-) A-I      intronic
chr13:51982041(-) A-I      intronic
chr13:52016396(-) A-I      intronic
chr13:52018682(-) A-I      intronic
chr13:52018457(-) A-I      intronic
chr13:52016886(-) A-I      intronic
chr13:52018434(-) A-I      intronic
chr13:52018846(-) A-I      intronic
chr13:52016360(-) A-I      intronic
chr13:52018349(-) A-I      intronic
chr13:51991879(-) A-I      intronic
chr13:52007455(-) A-I      intronic
chr13:52018507(-) A-I      intronic
chr13:52018514(-) A-I      intronic
chr13:51957091(-) A-I      intronic
chr13:52017225(-) A-I      intronic
chr13:52018719(-) A-I      intronic
chr13:52018449(-) A-I      intronic
Resource Symbol Editing Position Change SeqReg exReg PMID
DARNED INTS6
chr13:51981906(-) A-G intron -    22484847
chr13:52016360(-) A-G intron -    22484847
chr13:52018449(-) A-G intron -    22484847

RNA Modification:


Resource Symbol ModificationPosition Type Genomic Context PMID
RMBase INTS6
chr13:51928405-51928406(-) m6A exon       27773535
chr13:51928439-51928440(-) m6A exon       27773535
chr13:51928457-51928458(-) m6A exon       27773535
chr13:51939482-51939483(-) m6A 3'UTR//intron       27773535
chr13:51939544-51939545(-) m6A 3'UTR//intron       27773535
chr13:51939580-51939581(-) m6A 3'UTR//intron       27773535
chr13:51939657-51939658(-) m6A 3'UTR//exon//intron       27773535
chr13:51939675-51939676(-) m6A 3'UTR//exon//intron       27773535
chr13:51939826-51939827(-) m6A 3'UTR//exon//intron       24981863//27773535
chr13:51939945-51939946(-) m6A 3'UTR//CDS//exon       24981863//27773535
chr13:51939956-51939957(-) m6A 3'UTR//CDS//exon       24981863//27773535
chr13:51941978-51941979(-) m6A 3'UTR//CDS//exon       24981863//27773535//22608085
chr13:51941983-51941984(-) m6A 3'UTR//CDS//exon       24981863//27773535//22608085
chr13:51943117-51943118(-) m6A 3'UTR//CDS//exon       24981863//27773535//22608085
chr13:51943190-51943191(-) m6A 3'UTR//CDS//exon       24981863//27773535//22608085
chr13:51943207-51943208(-) m6A 3'UTR//CDS//exon       24981863//27773535//22608085
chr13:51943266-51943267(-) m6A 3'UTR//CDS//exon       24284625//24981863//27773535//22608085
chr13:51943373-51943374(-) m6A 3'UTR//CDS//exon       24284625//24981863//27773535//27371828//22608085
chr13:51943388-51943389(-) m6A 3'UTR//CDS//exon       24284625//24981863//27773535//27371828//22608085
chr13:51943437-51943438(-) m6A 3'UTR//CDS//exon       24284625//24981863//27773535//22608085
chr13:51948362-51948363(-) m6A 3'UTR//CDS//exon       24981863//27773535//22608085
chr13:51948404-51948405(-) m6A 3'UTR//CDS//exon       27773535
chr13:51948426-51948427(-) m6A 3'UTR//CDS//exon       27773535
chr13:51948446-51948447(-) m6A 3'UTR//CDS//exon       27773535
chr13:51948506-51948507(-) m6A 3'UTR//CDS//exon       27773535
chr13:51948524-51948525(-) m6A 3'UTR//CDS//exon       27773535
chr13:51948536-51948537(-) m6A 3'UTR//CDS//exon       27773535
chr13:51948852-51948853(-) m6A 3'UTR//CDS//exon       27773535
chr13:51959037-51959038(-) m6A 5'UTR//intron       27773535
chr13:51959042-51959043(-) m6A 5'UTR//intron       27773535
chr13:51959053-51959054(-) m6A 5'UTR//intron       27773535
chr13:51959059-51959060(-) m6A 5'UTR//intron       27773535
chr13:51961589-51961590(-) m6A 3'UTR//CDS//exon       -
chr13:51961602-51961603(-) m6A 3'UTR//CDS//exon       -
chr13:51961617-51961618(-) m6A 3'UTR//CDS//exon       -
chr13:51963476-51963477(-) m6A 3'UTR//CDS//intron       24981863
chr13:51963492-51963493(-) m6A 3'UTR//CDS//intron       24981863
chr13:52024367-52024368(-) m6A 3'UTR//intron       27773535
chr13:52025017-52025018(-) m6A 3'UTR//intron       27773535
chr13:52025061-52025062(-) m6A 3'UTR//intron       27773535
chr13:52025089-52025090(-) m6A 3'UTR//intron       27773535
chr13:52025107-52025108(-) m6A 3'UTR//intron       27773535
chr13:52025173-52025174(-) m6A CDS//exon       27773535
chr13:52025219-52025220(-) m6A CDS//exon       27773535
chr13:52025247-52025248(-) m6A CDS//exon       27773535
chr13:52025263-52025264(-) m6A CDS//exon       27773535
chr13:52026159-52026160(-) m6A CDS//exon       -
chr13:52026177-52026178(-) m6A CDS//exon       -
chr13:52026635-52026636(-) m6A 5'UTR//CDS//exon       27773536
chr13:52026788-52026789(-) m6A 5'UTR//intron       27773536
chr13:52026794-52026795(-) m6A 5'UTR//intron       27773536
chr13:52026816-52026817(-) m6A 5'UTR//intron       25456834//27773536
chr13:52026928-52026929(-) m6A 5'UTR//intron       25456834//24981863//27371828//27773536//22608085
chr13:52026936-52026937(-) m6A 5'UTR//intron       25456834//24981863//27371828//27773536//22608085
chr13:52026958-52026959(-) m6A 5'UTR//intron       25456834//24981863//27371828//27773536//22608085
chr13:52026988-52026989(-) m6A 5'UTR//intron       25456834//27371828//27773536
chr13:52027107-52027108(-) m6A 5'UTR//intron       24981863//27371828//27773536
chr13:52027194-52027195(-) m6A 5'UTR//intron       24981863//27773536
chr13:52028252-52028253(-) m6A 5'UTR       -
chr13:52028273-52028274(-) m6A 5'UTR       -
chr13:52028356-52028357(-) m6A 5'UTR       -
chr13:52028370-52028371(-) m6A 5'UTR       -
chr13:52028384-52028385(-) m6A 5'UTR       -

RNA Localization:


Resource Symbol Subcellular Localization Tissue or Cell Line PMID
RNALocate INTS6
Chromatin K562 cells     -
Cytosol HCC cell line (HepG2)|K562 cells     -
Exosome Blood     -
Membrane K562 cells     -
Nucleolus K562 cells     -
Nucleoplasm K562 cells     -
Nucleus HCC cell line (HepG2)|HeLa-S3 cells|K562 cells     -
Ribosome-free cytosol Colon cancer cells     24393600

Interaction Network (The top 100 interactions):


Interactor1: kshv-miR-K12-10b
Interactor2: INTS6

Evidence Support:


Weak-Evidence PAR-CLIP
Prediction-Evidence cRep//miRanda//PARalyzer//Rep//Targetscan
Support Database RepTar//ViRBase//VmiReg

References:


PMID 22100165 Target region 3'UTR
Source RepTar//ViRBase//VmiReg Interactor1 expression None
Tissue or cell line BC-1 cells Interactor2 expression None
Description Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.

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